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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AACTCGGTGTGCTAGTTGGGAAAGGAGGACTTCATGGCAATGTTTTCAGGATCAAGCCACCAATGTGTTTCTCCAAAGATGATGCAGgtatagttctgtcctcactctctcaacaaacttagatgcaaaatgtcattacatttgactgacagttctccacgtgtgcag

Basic information

species Glycine max
transcript GLYMA05G31630.1
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G31630.1 (Glycine max), 5'ss of exon 8
lower sequence: AT4G39660.1 (Arabidopsis thaliana), 5'ss of exon 8
AACTCGGTGTGCTAGTTGGGAAAGGAGGACTTCATGGCAATGTTTTCAGGATCAAGCCACCAATGTGTTTCTCCAAAGATGATGCAGgtatagttct-gtcctcac-tctctcaacaa-----------acttagatgcaaaatgtcattacatttgactgacagttc-tccacgtgtgcag--------------
|||| ||  | || || || ||||||||||||||||| || ||||||||||| |||||||||||||||||| | |||||||||||||||| | |  | ||    |  || || || |            ||  |    ||||| |  |||  ||   |   | | |   |    |||||  |              
AACTTGGCATTCTCGTCGGAAAAGGAGGACTTCATGGGAACGTTTTCAGGATAAAGCCACCAATGTGTTTCACTAAAGATGATGCAGgtaaattcttagtttatatatcgcttaaaattatgaagtttcaccaaagaacaaaacgagattgtataatatctataatgaatttgtgtgtgttgtaatgtatccacag

upper sequence: GLYMA05G31630.1 (Glycine max), 5'ss of exon 8
lower sequence: Vv07s0031g01330.t01 (Vitis vinifera), 5'ss of exon 8
AACTCGGTGTGCTAGTTGGGAAAGGAGGACTTCATGGCAATGTTTTCAGGATCAAGCCACCAATGTGTTTCTCCAAAGATGATGCAGgtatagttctgtcct--cactctctcaacaaacttagatgcaaaatgtcattacatttgactgacagttctc---cacgtgtgcag-------------------------------------------------------------------------------------------------------
|  ||||| | ||  | || || |||||||| ||||| ||||| ||||| || |||||||| ||||||||| ||||||||||||| ||||   || |   ||  ||||   |    | | | | || ||||      ||   ||  |   |||    |     |  | || |                                                                                                        
AGATCGGTATTCTTATCGGAAAGGGAGGACTACATGGAAATGTCTTCAGAATAAAGCCACCTATGTGTTTCACCAAAGATGATGCTGgtactcttttcatctttcactgcatttgaagaatcaaat-caaacccctcttgatttcaatcaacaaccataaaataactatgaaagattccaaaatcaaagaaaaaaccctgtgtttttccctctgtgaaatctacagtcataccttcattttccattacaaaaatttactagtttctgtatgtgcag

upper sequence: GLYMA05G31630.1 (Glycine max), 5'ss of exon 8
lower sequence: PP1S32_198V6.1 (Physcomitrella patens), 5'ss of exon 8
AACTCGGTGTGCTAGTTGGGAAAGGAGGACTTCATGGCAATGTTTTCAGGATCAAGCCACCAATGTGTTTCTCCAAAGATGATGCAGgtatagttct-gtcctcactctct---------caacaaa---cttagatgcaaaatgtcattacatttgactgacagttctccacgtgtgcag-------
| ||||| ||  |||||||||| || || |||||||| ||||| || || |||||||| || ||||||||||| |  || ||||||||| |  | ||  | | || |||||         |||   |    ||   | |||| |  |  |||||   |    | ||  |  || ||  ||        
ACCTCGGAGTTTTAGTTGGGAAGGGCGGGCTTCATGGAAATGTCTTTAGAATCAAGCCTCCTATGTGTTTCTCAATGGAAGATGCAGgtgtgttcctcattcccattctctgcttgtgttcaatgtagtatttttgttcaaactacctctacatcccaaaagcggtattt-acatgaacaactgcatt

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|254331191|gb|GR843310.1|GR843310
EST:     CAATGTTTTCAGGATCAAGCCACCAATGTGTTTCTCCAAAGATGATGCAG                         ATTTTCTTGTGGATGCCTTGGACTATTCTCTATCTAAGTTGTGAGCTGATT
genomic: CAATGTTTTCAGGATCAAGCCACCAATGTGTTTCTCCAAAGATGATGCAGgtatagttct ... acgtgtgcagATTTTCTTGTGGATGCCTTGGACTATTCTCTATCTAAGTTGTGAGCTGATT
EST: gi|208153448|gb|GD951393.1|GD951393
EST:     CAATGTTTTCAGGATCAAGCCACCAATGTGTTTCTCCAAAGATGATGCAG                         ATTTTCTTGTGGATGCCTTGGACTATTCTCTATCTAAGTTGTGAGCTGATT
genomic: CAATGTTTTCAGGATCAAGCCACCAATGTGTTTCTCCAAAGATGATGCAGgtatagttct ... acgtgtgcagATTTTCTTGTGGATGCCTTGGACTATTCTCTATCTAAGTTGTGAGCTGATT
EST: gi|254330912|gb|GR842177.1|GR842177
EST:     CAATGTTTTCAGGATCAAGCCACCAATGTGTTTCTCCAAAGATGATGCAG                         ATTTTCTTGTGGATGCCTTGGACTATTCTCTATCTAAGTTGTGAGCTGATT
genomic: CAATGTTTTCAGGATCAAGCCACCAATGTGTTTCTCCAAAGATGATGCAGgtatagttct ... acgtgtgcagATTTTCTTGTGGATGCCTTGGACTATTCTCTATCTAAGTTGTGAGCTGATT
EST: gi|209727818|gb|BW658742.1|BW658742
EST:     CAATGTTTTCAGGATCAAGCCACCAATGTGTTTCTCCAAAGATGATGCAG                         ATTTTCTTGTGGATGCCTTGGACTATTCTCTATCTAAGTTGTGAGCTGATT
genomic: CAATGTTTTCAGGATCAAGCCACCAATGTGTTTCTCCAAAGATGATGCAGgtatagttct ... acgtgtgcagATTTTCTTGTGGATGCCTTGGACTATTCTCTATCTAAGTTGTGAGCTGATT
EST: gi|6726941|gb|AW311221.1|AW311221
EST:     CAATGTGTTTCTCTAAAGATGATGCAG                         ATTTTCTTGTGGATGCCTTGGACTATTCTCTATCTAAGTTGTGAGCTGATT
genomic: CAATGTGTTTCTCCAAAGATGATGCAGgtatagttct ... acgtgtgcagATTTTCTTGTGGATGCCTTGGACTATTCTCTATCTAAGTTGTGAGCTGATT
EST: gi|193626557|gb|FK574405.1|FK574405
EST:     CAATGTTTTCAGGATCAAGCCACCAATGTGTTTCTCCAAAGATGATGCAG                         ATTTTCTTGTGGATGCCTTGGACTATTCTC
genomic: CAATGTTTTCAGGATCAAGCCACCAATGTGTTTCTCCAAAGATGATGCAGgtatagttct ... acgtgtgcagATTTTCTTGTGGATGCCTTGGACTATTCTC
EST: gi|6912846|gb|AW394330.1|AW394330
EST:     CAATGTTTTCAGGATCAAGCCACCAATGTGTTTCTCCAAAGATGATGCAG                         ATTTTCTTGTGGATGCCTTGGACTATTCTCTATCTAAGTTGTGAGCTGATT
genomic: CAATGTTTTCAGGATCAAGCCACCAATGTGTTTCTCCAAAGATGATGCAGgtatagttct ... acgtgtgcagATTTTCTTGTGGATGCCTTGGACTATTCTCTATCTAAGTTGTGAGCTGATT
EST: gi|254331192|gb|GR843311.1|GR843311
EST:     CAATGTTTTCAGGATCAAGCCACCAATGTGTTTCTCCAAAGATGATGCAG                         ATTTTCTTGTGGATGCCTTGGACTATTCTCTATCTAAGTTGTGAGCTGATT
genomic: CAATGTTTTCAGGATCAAGCCACCAATGTGTTTCTCCAAAGATGATGCAGgtatagttct ... acgtgtgcagATTTTCTTGTGGATGCCTTGGACTATTCTCTATCTAAGTTGTGAGCTGATT
EST: gi|13790393|gb|BG652984.1|BG652984
EST:     CAATGTTTTCAGGATCAAGCCACCAATGTGTTTCTCCAAAGATGATGCAG                         ATTTTCTTGTGGATGCCTTGGACTATTCTCTATCTAAGTTGTGAGCTGATT
genomic: CAATGTTTTCAGGATCAAGCCACCAATGTGTTTCTCCAAAGATGATGCAGgtatagttct ... acgtgtgcagATTTTCTTGTGGATGCCTTGGACTATTCTCTATCTAAGTTGTGAGCTGATT
EST: gi|7588697|gb|AW704487.1|AW704487
EST:     CAATGTTTTCAGGATCAAGCCACCAATGTGTTTCTCCAAAGATGATGCAG                         ATTTTCTTGTGGATGCCTTGGACTATTCTCTATCTAAGTTGTGAGCTGATT
genomic: CAATGTTTTCAGGATCAAGCCACCAATGTGTTTCTCCAAAGATGATGCAGgtatagttct ... acgtgtgcagATTTTCTTGTGGATGCCTTGGACTATTCTCTATCTAAGTTGTGAGCTGATT
EST: gi|209704503|gb|BW678432.1|BW678432
EST:     CAATGTTTTCAGGATCAAGCCACCAATGTGTTTCTCCAAAGATGATGCAG                         ATTTTCTTGTGGATGCCTTGGACTATTCTCTATCTAAGTTGTGAGCTGATT
genomic: CAATGTTTTCAGGATCAAGCCACCAATGTGTTTCTCCAAAGATGATGCAGgtatagttct ... acgtgtgcagATTTTCTTGTGGATGCCTTGGACTATTCTCTATCTAAGTTGTGAGCTGATT

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AACTCGGTGTGCTAGTTGGGAAAGGAGGACTTCATGGCAATGTTTTCAGGATCAAGCCACCAATGTGTTTCTCCAAAGATGATGCAGgtatagttctgtcctcactctctcaacaaacttagatgcaaaatgtcattacatttgactgacagttctccacgtgtgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG